LOCUS       NZ_CP031658             3174 bp    DNA     circular CON 17-JUN-2024
DEFINITION  Escherichia coli strain UK_Dog_Liverpool plasmid pCARB35_05,
            complete sequence.
ACCESSION   NZ_CP031658
VERSION     NZ_CP031658.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09829654
            Assembly: GCF_003413625.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3174)
  AUTHORS   Phan,H.T.T., Stoesser,N., Timofte,D., Reynolds,M., George,S. and
            Hubbard,A.
  TITLE     Occurrence and characterisation of Escherichia coli Sequence Type
            410 co-harbouring blaNDM-5, blaCMY-24 and blaTEM-190 in a dog from
            the United Kingdom
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3174)
  AUTHORS   Phan,H.T.T., Stoesser,N., Timofte,D., Reynolds,M., George,S. and
            Hubbard,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-AUG-2018) Nuffield Department of Micriobiology,
            University of Oxford, Headley way, Oxford, Oxford OX3 7BN, United
            Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 24-MAY-2018
            Assembly Method                   :: Unicycler v. v4.1
            Assembly Name                     :: ULIV_CARB35_1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 169.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003413625.1-RS_2024_06_17
            Annotation Date                   :: 06/17/2024 06:57:34
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,016
            CDSs (total)                      :: 4,893
            Genes (coding)                    :: 4,631
            CDSs (with protein)               :: 4,631
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 262
            CDSs (without protein)            :: 262
            Pseudo Genes (ambiguous residues) :: 0 of 262
            Pseudo Genes (frameshifted)       :: 91 of 262
            Pseudo Genes (incomplete)         :: 170 of 262
            Pseudo Genes (internal stop)      :: 51 of 262
            Pseudo Genes (multiple problems)  :: 43 of 262
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP031658.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3174
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="UK_Dog_Liverpool"
                     /isolation_source="foreleg infected wound"
                     /host="dog"
                     /db_xref="taxon:562"
                     /plasmid="pCARB35_05"
                     /geo_loc_name="United Kingdom: Greater London"
                     /lat_lon="51.4309 N 0.0936 W"
                     /collection_date="2016-12-06"
                     /collected_by="Axiom Veterinary Laboratories Ltd, Newton
                     Abbott, UK"
                     /genotype="ST410"
     gene            complement(join(2750..3174,1..4))
                     /locus_tag="DL545_RS26790"
                     /old_locus_tag="DL545_26790"
     CDS             complement(join(2750..3174,1..4))
                     /locus_tag="DL545_RS26790"
                     /old_locus_tag="DL545_26790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(join(3142..3174,1..138))
                     /locus_tag="DL545_RS27110"
     CDS             complement(join(3142..3174,1..138))
                     /locus_tag="DL545_RS27110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            296..724
                     /locus_tag="DL545_RS26795"
                     /old_locus_tag="DL545_26795"
     CDS             296..724
                     /locus_tag="DL545_RS26795"
                     /old_locus_tag="DL545_26795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1113..1436)
                     /gene="mobA"
                     /locus_tag="DL545_RS26800"
                     /old_locus_tag="DL545_26800"
     CDS             complement(1113..1436)
                     /gene="mobA"
                     /locus_tag="DL545_RS26800"
                     /old_locus_tag="DL545_26800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_052584083.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQVIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            1720..1914
                     /locus_tag="DL545_RS26805"
                     /old_locus_tag="DL545_26805"
     CDS             1720..1914
                     /locus_tag="DL545_RS26805"
                     /old_locus_tag="DL545_26805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001485273.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(1446..1685)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          1950..2475
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.03"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          complement(1117..1436)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="2.92e-61"
ORIGIN
        1 ccatgctctt ctctgctccc gacttagacc agatggcatt gtaacagact tctcattcgc
       61 tctggaaatc aacagagaca aggatacgcc aaaaacctca atatctttaa caagatcatg
      121 acgttgttcg gttttcatat cgctaactcc gtatctaatt caggcaggaa aaaatctttt
      181 cctcgttttc agagtagtct tttttggttg cacaataatg gcgctagtgt caccctattc
      241 atatgaatat accatataat atatacttta aatattttgg ggcttaggaa aatcaatgac
      301 ttactccgtt aagaataaat ggaaagctgg cggtttgtct cttggctgga cagcagtgcc
      361 taccgtattg ttttttatac aaaacgagaa aaagctaact tcagtggcct ttaacacact
      421 acttaacctg atcgttcact ggtggagttt gcaagagtgg ccgcatccgt caatggaaag
      481 tctagccata cgtatggggg tttctgtacg gactgttcag agagctatca atgatcttga
      541 aaaagctaat ctcttggaca agaaaccaac atcgaagagt gatcgccgat atggtggtcg
      601 caatatttat gatctaacaa agctagttga ctacctagat acaatgggtc catcagtagc
      661 tgaacaagtt aagaaaccac gccataaaaa accggtatat accgtaagaa aaacgacagc
      721 ttaaaaaagc acaatggaac tgagcgcgag cgatgcacga tagcaaaacg atatattact
      781 tattgcattg gtcttggtag ccctgcttct ggctaaacca ctgtcaggag taattggctt
      841 tgcctgtaat gggttcatcg cttcacagtt aaagttatcg catagctcat atatttacca
      901 taatccctta attgtacgca ccactgaaac gcgctgaacg cgattctgac gcagacaccg
      961 caaaaagaga tgttttaccc cggaaaaaca ggaaggatgc gtcaggatcg ttttcagctc
     1021 gctgcatagc tatgcatgaa agcgaatggt gatcactttg ggagcttacg gtgttcatac
     1081 cgtcagtttt cgacagtttt ctctccggga agctaatctg ccataagcct ggataacagg
     1141 gcacggtgat actccgtaat agcgatcagc acctccgcat actccctgtc cccgacacgc
     1201 ttgccgtcga taaagagttt tttctgtaac gcccccagtc tcataacttc tttcagtacc
     1261 cgatcatcag tcagtgagtt aactttctta ccgagagctg ccgcccgtaa aaaaccggaa
     1321 acggtcttgc cgcattcagc agcccttttt ctgattacct ggtcttcttc tgccgtcaga
     1381 cgaacagggc gactgatagc ccgcctgcgc gtattacttc cacttcgttt tgtcataaaa
     1441 catggctccg tatctgacat gggtgtcggg gcaaagccct gaccagggta attgtaatag
     1501 cgtgcatgta tgcgcggtat aacaattaca catcctgtcc tgtcagcaag ttcgaattac
     1561 cgacaaaggc acggcagttt tttggcagtg acagtgttgt ctgacagaaa tgcccgtcaa
     1621 agagtcagac agcagaatac cgacggtaaa acagtcgaaa agtggtacgc gatataatca
     1681 cacaacgcag atgacagaaa gaacggagaa aacagaaaga tgaacaagca gcagcaaacc
     1741 gtactcaaca tggcaggatt cataaaaagc cagagcctga cgctgctcga aaaactggac
     1801 gcacttgatg ctgacgaaca ggccgccatg tgtgagaagc tgcacgaact cgcggaagaa
     1861 cttcagaaca gcatacagac acgctttgaa gcggaaaatc ttaccgggat ataacgcatc
     1921 cggacaggat gcagaacggc atagaggagc gtaaggagaa aatgtcacat aaggcgctct
     1981 tccgcttcct cgctcactga ctcgctacgc tcggtcgttc gactgcggcg agcggtgtca
     2041 gctcactcaa aggcggtaat acggttatcc acagaatcag gggataacgc cggaaagaac
     2101 atgtgagcaa aaagccgaag ccagggacaa aggccgcgcc gttggcgttt ttccataggc
     2161 tccgcccccc tgacgagcat cacaaaaacc gacgctcaag tcagaggtgg cgaaacccga
     2221 caggactata aagataccag gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc
     2281 cgaccctgcc gcttaccgga tacctgtccg cctttctccc ttcgggaagc gtggcgcttt
     2341 ctcatagctc acgctgttgg tatctcggtt cggtgtaggt cgttcgctcc aagctgggct
     2401 gtgtgcacga accccccgtt cagcccgacc gctgcgcctt atccggtaac tatcgtcttg
     2461 agtccaaccc ggtaagacac gacttaacgc cactggcaac ggccactggt aagcaggatg
     2521 tgcgagagat gtaacgagag ttcttgaagt ggcggcctaa ctgaggctac actgaaagga
     2581 cagtatttgg tgacatgtct cgcacaagac tgttaccacg gttagagaat ctgccaggat
     2641 taactaacct tcgaaaaacc acctgccagg gtggtttttt cgtttttaca atagtgagat
     2701 tacgacgaga ctgaatgaat ctcaagattt catttagcct gccgctcgat cattcaaagt
     2761 tttgaggtag cttcattggg tcatggtatc caagctctaa aagctttata tggttcggtg
     2821 tcagccgctg gaaatgaata acccagtcag aaaccttgta tttcccatga aacgtatctt
     2881 taaaaaccgg atcgcctaaa tgagcatgcc ataatttgtt agctctagca tacttctcaa
     2941 tagcttcttt gttttcgtaa tgatcaggca ctttccacga tggcgatact ttgccagtcc
     3001 aagctggata tccttttaaa ggatcgccaa agagattgta tttttcaaaa tgctcaatga
     3061 aatcatcgat tttatcgagt gtttttgcag aatatctgga tgtgtaataa aggttgaagg
     3121 tctcagagaa tgagacaata ttcaattgtg gattttgcgc gcctgctccg ctgc
//
